Alignment viewer

BLASTN 2.6.0+ Reference: Stephen F. Altschul, Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Database: Neotoma_20lepida_20[genbank_20GCA_5F001675575.1_202016-06-23] 119,373 sequences; 2,353,855,022 total letters Query= NC_029692.1 Length=362276 Score E Sequences producing significant alignments: (Bits) Value seq97228 181 2e-40 seq7954 172 1e-37 seq117227 147 5e-30 seq66478 140 8e-28 seq75922 136 9e-27 seq66268 123 6e-23 seq7963 113 1e-19 seq117087 107 4e-18 seq118086 95.1 3e-14 seq97156 91.5 3e-13 seq97151 91.5 3e-13 seq9545 87.8 4e-12 seq75879 86.0 1e-11 >seq97228 Length=228612 Score = 181 bits (200), Expect = 2e-40 Identities = 175/225 (78%), Gaps = 0/225 (0%) Strand=Plus/Minus Query 210893 ACGAAGTCTTAGGACAAGGTGAAGAGTGGACTCTTTTTGGATGTTATAATCCGCAAGGGT 210952 ||||||||| | ||||| ||||| |||||||| ||||| ||||| || || | | || Sbjct 211787 ACGAAGTCTCAACACAAGATGAAGGGTGGACTCCTTTTGAATGTTGTAGTCAGACAAAGT 211728 Query 210953 CCTTCCATCTTCCAGCTGCTTGCCTGCGAAGATAAGGCGTTGTTGGTCAGGAGGAACTCC 211012 | ||||||||||||||||| || |||||||| || | ||| || |||||||||| ||| Sbjct 211727 ACGGCCATCTTCCAGCTGCTTACCAGCGAAGATCAGCCTTTGCTGATCAGGAGGAATTCC 211668 Query 211013 TTCCTTGTCCTGGATCTTTTGTTTCACGTTTTCGATGGTGTCAGAGCTTTCAACCTCGAG 211072 ||| || ||||||||||| || || ||||| || ||||| ||| |||||||||||| Sbjct 211667 TTCTTTATCCTGGATCTTGGCCTTTACATTTTCTATAGTGTCCGAGGGTTCAACCTCGAG 211608 Query 211073 AGTGATCGTCTTTCCCGTGAGAGTCTTTACAAACACCTGCATTTT 211117 ||||| || || ||| | || ||||| || || | |||||| || Sbjct 211607 CGTGATGGTTTTCCCCATAAGGGTCTTCACGAAAATCTGCATCTT 211563 >seq7954 Length=808569 Score = 172 bits (190), Expect = 1e-37 Identities = 172/223 (77%), Gaps = 0/223 (0%) Strand=Plus/Minus Query 210895 GAAGTCTTAGGACAAGGTGAAGAGTGGACTCTTTTTGGATGTTATAATCCGCAAGGGTCC 210954 ||||||| | ||||| ||||| |||||||| ||||| ||| | || || | | || | Sbjct 793861 GAAGTCTCAACACAAGATGAAGGGTGGACTCCTTTTGAATGCTGTAGTCAGACAAAGTAC 793802 Query 210955 TTCCATCTTCCAGCTGCTTGCCTGCGAAGATAAGGCGTTGTTGGTCAGGAGGAACTCCTT 211014 ||||||||||||||||| || |||||||| || | ||| || |||||||||| ||||| Sbjct 793801 GGCCATCTTCCAGCTGCTTACCAGCGAAGATCAGCCTTTGCTGATCAGGAGGAATTCCTT 793742 Query 211015 CCTTGTCCTGGATCTTTTGTTTCACGTTTTCGATGGTGTCAGAGCTTTCAACCTCGAGAG 211074 |||| ||||||||||| |||| ||||| || ||||| ||| |||||||||||| | Sbjct 793741 CCTTATCCTGGATCTTGGCCTTCAAATTTTCTATAGTGTCTGAGGGTTCAACCTCGAGCG 793682 Query 211075 TGATCGTCTTTCCCGTGAGAGTCTTTACAAACACCTGCATTTT 211117 |||| || || || || | ||||| ||||| | || ||| || Sbjct 793681 TGATGGTTTTCCCTGTAAAGGTCTTCACAAAAATCTCCATCTT 793639 >seq117227 Length=121535 Score = 147 bits (162), Expect = 5e-30 Identities = 167/223 (75%), Gaps = 1/223 (0%) Strand=Plus/Minus Query 210896 AAGTCTTAGGACAAGGTGAAGAGTGGACTCTTTTTGGATGTTATAATCCGCAAGGGTCCT 210955 |||||| | ||||| ||||| |||||||| ||||| ||||| || || | | || | Sbjct 79504 AAGTCTCAACACAAGATGAAGGGTGGACTCCTTTTGAATGTTGTAGTCAGACAAAGTACA 79445 Query 210956 TCCATCTTCCAGCTGCTTGCCTGCGAAGATAAGGCGTTGTTGGTCAGGAGGAACTCCTTC 211015 ||||||||||||||||| | || ||||| || | || | |||||||||| |||||| Sbjct 79444 GCCATCTTCCAGCTGCTTAGCAGCAAAGATCAGCCTCTGCTCATCAGGAGGAATTCCTTC 79385 Query 211016 CTTGTCCTGGATCTTTTGTTTCACGTTTTCGATGGTGTCAGAGCTTTCAACCTCGAGAGT 211075 ||| ||||||||||| || || ||||| || ||||| ||| |||||||| ||| || Sbjct 79384 CTTATCCTGGATCTTGGCCTTTACATTTTCTATAGTGTCCGAGGGTTCAACCTTGAGCGT 79325 Query 211076 GATCGTCTTTCCCGTGAGAGTCTTTACAAACACCTGCATTTTA 211118 ||| || || || || || ||| | || || | ||| || ||| Sbjct 79324 GATGGTTTTCCCTGTAAG-GTCCTCACGAAAATCTGAATCTTA 79283 >seq66478 Length=146994 Score = 140 bits (154), Expect = 8e-28 Identities = 154/205 (75%), Gaps = 0/205 (0%) Strand=Plus/Minus Query 210910 GGTGAAGAGTGGACTCTTTTTGGATGTTATAATCCGCAAGGGTCCTTCCATCTTCCAGCT 210969 |||| || ||||||||||| |||||||| || || | ||| || | ||||||||||||| Sbjct 11446 GGTGCAGGGTGGACTCTTTCTGGATGTTGTAGTCAGAAAGAGTGCAGCCATCTTCCAGCT 11387 Query 210970 GCTTGCCTGCGAAGATAAGGCGTTGTTGGTCAGGAGGAACTCCTTCCTTGTCCTGGATCT 211029 ||||||| || ||||| || || || |||||||| || | | || || ||||||||| Sbjct 11386 GCTTGCCAGCAAAGATGAGTCGCTGCTGGTCAGGGGGGATGTCCTCTTTACCCTGGATCT 11327 Query 211030 TTTGTTTCACGTTTTCGATGGTGTCAGAGCTTTCAACCTCGAGAGTGATCGTCTTTCCCG 211089 | || || || || ||||||||| | || || || || ||||| ||||| || | Sbjct 11326 TGGCCTTGACATTCTCAATGGTGTCACTGGGATCCACTTCCAGGGTGATGGTCTTGCCTG 11267 Query 211090 TGAGAGTCTTTACAAACACCTGCAT 211114 | || ||||| ||||| | |||||| Sbjct 11266 TCAGGGTCTTCACAAAGATCTGCAT 11242 Score = 138 bits (152), Expect = 3e-27 Identities = 158/213 (74%), Gaps = 0/213 (0%) Strand=Plus/Minus Query 210905 GACAAGGTGAAGAGTGGACTCTTTTTGGATGTTATAATCCGCAAGGGTCCTTCCATCTTC 210964 ||| ||||| || ||||||||||| |||||||| || || | ||| || | ||||||| Sbjct 11223 GACCAGGTGCAGGGTGGACTCTTTCTGGATGTTGTAGTCAGAAAGAGTGCAGCCATCTTT 11164 Query 210965 CAGCTGCTTGCCTGCGAAGATAAGGCGTTGTTGGTCAGGAGGAACTCCTTCCTTGTCCTG 211024 |||||||||||| || ||||| || || || |||||||| || | | || || ||||| Sbjct 11163 CAGCTGCTTGCCAGCAAAGATGAGTCGCTGCTGGTCAGGGGGGATGTCCTCTTTATCCTG 11104 Query 211025 GATCTTTTGTTTCACGTTTTCGATGGTGTCAGAGCTTTCAACCTCGAGAGTGATCGTCTT 211084 |||||| || || || || ||||||||| | || ||||| || ||||| ||||| Sbjct 11103 GATCTTGGCCTTGACATTCTCAATGGTGTCACTGGGCTCCACCTCNAGGGTGATGGTCTT 11044 Query 211085 TCCCGTGAGAGTCTTTACAAACACCTGCATTTT 211117 || || || ||||| | || | | |||||| Sbjct 11043 GCCGGTCAGGGTCTTCATGAAGATTTTCATTTT 11011 >seq75922 Length=371470 Score = 136 bits (150), Expect = 9e-27 Identities = 162/220 (74%), Gaps = 5/220 (2%) Strand=Plus/Plus Query 210903 AGGACAAGGTGAAGAGTGGACTCTTTTTGGATGTTATAATCCGCAAGGGTCCTTCCATCT 210962 ||||| ||||| || ||||||||||| |||||||| ||||| | ||| || | |||||| Sbjct 193741 AGGACCAGGTGCAGGGTGGACTCTTTCTGGATGTTGTAATCAGAAAGAGTGCGGCCATCT 193800 Query 210963 TCCAGCTGCTTGCCTGCGAAGATAAGGCGTTGTTGGTCAG-----GAGGAACTCCTTCCT 211017 |||||||||||||| || ||||| || | |||||||| | | || | || |||| Sbjct 193801 TCCAGCTGCTTGCCGGCAAAGATCAGCCTCTGTTGGTCGGGGAGAGGGGGATGCCCTCCT 193860 Query 211018 TGTCCTGGATCTTTTGTTTCACGTTTTCGATGGTGTCAGAGCTTTCAACCTCGAGAGTGA 211077 | ||||||||||| || || || || |||| |||| | || || || || |||| Sbjct 193861 TATCCTGGATCTTGGCCTTGACATTCTCAATGGAGTCACTGGGCTCCACTTCCAGGGTGA 193920 Query 211078 TCGTCTTTCCCGTGAGAGTCTTTACAAACACCTGCATTTT 211117 | ||||| | || || ||||| | || | ||||||||| Sbjct 193921 TGGTCTTGCTGGTCAGGGTCTTCATGAAGATCTGCATTTT 193960 >seq66268 Length=907216 Score = 123 bits (136), Expect = 6e-23 Identities = 147/198 (74%), Gaps = 1/198 (1%) Strand=Plus/Minus Query 210914 AAGAGTGGACTCTTTTTGGATGTTATAATCCGCAAGGGTCCTTCCATCTTCCAGCTGCTT 210973 |||| ||||| |||| |||| ||| || |||| || || | ||||| ||||||||||| Sbjct 480596 AAGA-TGGACCCTTTCTGGACGTTGTAGTCCGACAGAGTGCCGCCATCCTCCAGCTGCTT 480538 Query 210974 GCCTGCGAAGATAAGGCGTTGTTGGTCAGGAGGAACTCCTTCCTTGTCCTGGATCTTTTG 211033 ||| || || || || | || || ||||| | | ||||||||||| |||||||| Sbjct 480537 GCCAGCAAATATCAGCCTCTGCTGCTCAGGTAGGATGCCTTCCTTGTCTTGGATCTTGGC 480478 Query 211034 TTTCACGTTTTCGATGGTGTCAGAGCTTTCAACCTCGAGAGTGATCGTCTTTCCCGTGAG 211093 || || || || ||||||||| | || ||||| |||||||| ||||| ||||| || Sbjct 480477 CTTGACATTCTCAATGGTGTCACTGGGCTCGACCTCAAGAGTGATGGTCTTGCCCGTCAG 480418 Query 211094 AGTCTTTACAAACACCTG 211111 ||||| || || | ||| Sbjct 480417 GGTCTTCACGAAGATCTG 480400 >seq7963 Length=681008 Score = 113 bits (124), Expect = 1e-19 Identities = 120/159 (75%), Gaps = 0/159 (0%) Strand=Plus/Plus Query 210903 AGGACAAGGTGAAGAGTGGACTCTTTTTGGATGTTATAATCCGCAAGGGTCCTTCCATCT 210962 ||||| |||| || ||||||||||| |||||||| ||||| | ||| || | |||||| Sbjct 60898 AGGACCAGGTACAGGGTGGACTCTTTCTGGATGTTGTAATCAGAAAGAGTGCGGCCATCT 60957 Query 210963 TCCAGCTGCTTGCCTGCGAAGATAAGGCGTTGTTGGTCAGGAGGAACTCCTTCCTTGTCC 211022 || |||||||||| || ||||| || | || ||||| || || | || ||||| ||| Sbjct 60958 TCTAGCTGCTTGCNGGCAAAGATGAGCCTCTGCTGGTCCGGGGGGATGCCCTCCTTATCC 61017 Query 211023 TGGATCTTTTGTTTCACGTTTTCGATGGTGTCAGAGCTT 211061 |||||||| |||| ||| || |||| || ||||| Sbjct 61018 TGGATCTTGGCCTTCATGTTCTCAATGGCTACACAGCTT 61056 >seq117087 Length=234790 Score = 107 bits (118), Expect = 4e-18 Identities = 150/208 (72%), Gaps = 2/208 (1%) Strand=Plus/Minus Query 210895 GAAGTCTTAGGACAAGGTGAAGAGTGGACTCTTTTTGGATGTTATAATCCGCAAGGGTCC 210954 ||||||| | ||| | ||||| || ||||| |||| ||||||| || | | || | Sbjct 123128 GAAGTCTCAACACAGGATGAAGGGTAGACTCCATTTGAGTGTTATAGTCAGACAAAGTGC 123069 Query 210955 TTCCATCTTCCAGCTGCTTGCCTGCGAAGATAAGGCGTTGTTGGTCAGGAGGAACTCCTT 211014 | |||||||||||||| ||| || |||| || | | | || |||||||||| | | Sbjct 123068 AAC-ATCTTCCAGCTGCTGGCCAGCAAAGAGCAGCCTTAGCTGATCAGGAGGAATGCGTC 123010 Query 211015 CCTTGTCCTGGATCTTTTGTTTCACGTTTTCGATGGTGTCAGAGCTTTCAACCTCGAGAG 211074 ||| ||||| ||||| || || ||||| || ||||| ||| |||||||| ||| Sbjct 123009 CCTCATCCTGAATCTTGGCCTTTACATTTTCTATAGTGTCTGAGGGTTCAACCTTGAGCA 122950 Query 211075 TGATCGTCTT-TCCCGTGAGAGTCTTTA 211101 | || ||||| ||| |||| ||||||| Sbjct 122949 TTATGGTCTTCACCCATGAGGGTCTTTA 122922 >seq118086 Length=30590 Score = 95.1 bits (104), Expect = 3e-14 Identities = 138/195 (71%), Gaps = 10/195 (5%) Strand=Plus/Plus Query 210893 ACGAAGTCTTAGGACAAGGTGAAGAGTGGACTCTTTTTGGATGTTATAATCCGCAAGGGT 210952 ||||||| ||| | ||| |||||||||||||| | ||| ||||| || || | | || Sbjct 18686 ACGAAGTTTTAACAGAAGATGAAGAGTGGACTCATATTGAATGTTCTAGTCAGACAAAGT 18745 Query 210953 CCTTCCATCTTCCAGCTGCTTGCCTGCGAAGATAAGGCGTTGTTGGTCAGGAGGAACTCC 211012 | |||||||||| |||| || ||| || | | | || |||| |||| ||| Sbjct 18746 ACAGCCATCTTCCA--------CCTGTGATGATCAGCCTTGGCTGACCAGGGGGAATTCC 18797 Query 211013 TTCCTTGTCCTGGATCTTTTGTTTCACGTTTTCGATGGTGTCAGAGCTTTCAACCTCGAG 211072 |||||| ||||||||||| | || || ||||| || ||| || || |||||| || Sbjct 18798 TTCCTTATCCTGGATCTTGTTCTTTACATTTTCTAT--AGTCCGAAGGTTGAACCTCAAG 18855 Query 211073 AGTGATCGTCTTTCC 211087 |||| || ||||| Sbjct 18856 TATGATAGTTTTTCC 18870 >seq97156 Length=413001 Score = 91.5 bits (100), Expect = 3e-13 Identities = 104/136 (76%), Gaps = 4/136 (3%) Strand=Plus/Minus Query 210896 AAGTCTTAGGACAAGGTGAAGAGTGGACTCTTTTTGGATGTTATAATCCG-CAAGGGTCC 210954 |||||| | ||||| |||||| ||||||||||||| | ||| || || | ||| | Sbjct 395485 AAGTCTCAACACAAGATGAAGAATGGACTCTTTTTGAACGTTGTAGTCAGACAAATATG- 395427 Query 210955 TTCCATCTTCCAGCTGCTTGCCTGCGAAGATAAGGCGTTGTTGGTCAGGAGGAACTCCTT 211014 ||| |||||||||||||| || | ||||| | | |||||| || |||||| ||||| Sbjct 395426 -TCCGTCTTCCAGCTGCTTACCCAC-AAGATTGGCCTCTGTTGGCCAAGAGGAATTCCTT 395369 Query 211015 CCTTGTCCTGGATCTT 211030 ||| ||||||||||| Sbjct 395368 CCTCATCCTGGATCTT 395353 >seq97151 Length=436015 Score = 91.5 bits (100), Expect = 3e-13 Identities = 85/108 (79%), Gaps = 0/108 (0%) Strand=Plus/Minus Query 211011 CCTTCCTTGTCCTGGATCTTTTGTTTCACGTTTTCGATGGTGTCAGAGCTTTCAACCTCG 211070 ||||||||||| |||||||| || || || |||||||||||| | || ||||| Sbjct 143197 CCTTCCTTGTCTTGGATCTTGGCCTTGACATTCTCGATGGTGTCACTGGGCTCGACCTCA 143138 Query 211071 AGAGTGATCGTCTTTCCCGTGAGAGTCTTTACAAACACCTGCATTTTA 211118 |||||||| ||||| ||||| || ||||| ||||| | |||||| ||| Sbjct 143137 AGAGTGATGGTCTTGCCCGTCAGGGTCTTCACAAAGATCTGCATGTTA 143090 >seq9545 Length=18559 Score = 87.8 bits (96), Expect = 4e-12 Identities = 138/195 (71%), Gaps = 2/195 (1%) Strand=Plus/Plus Query 210893 ACGAAGTCTTAGGACAAGGTGAAGAGTGGACTCTTTTTGGATGTTATAATCCGCAAGGGT 210952 || |||||| || ||||| | |||||||||||| |||| ||||| || || | | || Sbjct 10939 ACAAAGTCTCAGCACAAGAT-AAGAGTGGACTCCCTTTGAATGTTGTAGTCAGACAAAGT 10997 Query 210953 CCTTCCATCTTCCAGCTGCTTGCCTGCGAAGATAAGGCGTTGTTGGTCAGGAGGAACTCC 211012 | |||||||| |||||||| || || | ||| | | || | ||||||||| || Sbjct 10998 ACAGCCATCTTCAAGCTGCTTACCAGC-AGGATCAACCTCTGCTCATCAGGAGGAGTCCC 11056 Query 211013 TTCCTTGTCCTGGATCTTTTGTTTCACGTTTTCGATGGTGTCAGAGCTTTCAACCTCGAG 211072 ||||| ||||| ||||| || || ||||| || |||| ||| |||| | | ||| Sbjct 11057 GTCCTTATCCTGAATCTTGGCCTTTACATTTTCTATAGTGTGTGAGGGTTCATCTTGGAG 11116 Query 211073 AGTGATCGTCTTTCC 211087 | ||| | ||| || Sbjct 11117 CGGGATGGCCTTCCC 11131 >seq75879 Length=626627 Score = 86.0 bits (94), Expect = 1e-11 Identities = 135/191 (71%), Gaps = 3/191 (2%) Strand=Plus/Minus Query 210927 TTTTGGATGTTATAATCCGCAAGGGTCCTTCCATCTTCCAGCTGCTTGCCTGCGAAGATA 210986 || || ||||| ||||| | |||| | ||||||||||||||||||||||| |||| Sbjct 288547 TTCTGAATGTTGTAATCAGAAAGGCTGG--CCATCTTCCAGCTGCTTGCCTGCACAGATG 288490 Query 210987 AGGCGTTGTTGGTCAGGAGGAACTCCTTCCTTGTCCTGGATCTTTTGTTTCACGTTTTCG 211046 || | || |||||||| | | || | | ||||||||||| ||||| || || Sbjct 288489 AGCCTCTGCTGGTCAGGGGATATGCCATTTTCATCCTGGATCTTGGCCTTCACATTCTCA 288430 Query 211047 ATGGTGTCAGAGCTTTCAACCTCGAGAGTGATCGTCTTTCCCGTGAGAGTCTTTACAAAC 211106 | ||||||| | || | ||| || ||||| ||||| | | || ||||| ||||| Sbjct 288429 AGGGTGTCACTGGGCTCCA-CTCTAGGGTGATGGTCTTGCAATTCAGGGTCTTCACAAAG 288371 Query 211107 ACCTGCATTTT 211117 | | |||||| Sbjct 288370 ATTTTCATTTT 288360 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 1157379115775145